X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 20% (W/V) PEG 3350, 200 MM NABR, 100 MM BIS-TRIS PROPANE PH 8.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.58 α = 90
b = 56.58 β = 90
c = 56.58 γ = 90
Symmetry
Space Group I 21 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA -- SLS X10SA

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.08 18 99.5 0.08 -- -- 4.11 -- 13026 -- 0.0 12.0
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.08 1.15 98.8 0.66 -- 2.01 3.97 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
SAD 1.08 16.33 -- -- -- 12350 657 99.85 -- 0.12938 0.12741 0.16748 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.082 1.11 -- 48 921 0.203 0.258 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.58
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 8.82
r_symmetry_vdw_other 0.281
r_angle_refined_deg 1.834
r_dihedral_angle_1_deg 4.897
r_nbd_refined 0.385
r_bond_refined_d 0.019
r_symmetry_hbond_refined 0.191
r_symmetry_vdw_refined 0.091
r_sphericity_bonded 6.026
r_mcangle_it 5.732
r_xyhbond_nbd_refined 0.17
r_mcbond_other 3.975
r_dihedral_angle_3_deg 14.385
r_nbtor_other 0.092
r_dihedral_angle_4_deg 11.299
r_sphericity_free 8.898
r_rigid_bond_restr 2.924
r_nbd_other 0.211
r_mcbond_it 5.237
r_bond_other_d 0.003
r_nbtor_refined 0.184
r_angle_other_deg 1.259
r_scbond_it 6.889
r_gen_planes_refined 0.008
r_dihedral_angle_2_deg 36.995
r_chiral_restr 0.137
r_gen_planes_other 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 256
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 70

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
XDS data reduction
XSCALE data scaling
SHELX phasing